RetrogeneDB ID: retro_meug_997

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold2537:1677..2028(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: TMCO1
• Ensembl ID: ENSMEUG00000011045
• Aliases: None
• Description: transmembrane and coiled-coil domains 1 [Source:HGNC Symbol;Acc:18188]

Sequence

>retro_meug_997
AAAAGAAGAGAATAGAGAGGCAGGAGGAGAAACTGAAGAATAACAATGGTTCGAATGAAATCTAGGTTTGCTATTGACTT
TGTTTTACTGCCCTGAGGGGAATGTTTAACTCCATATTGATGGCCAGGTGGTGGCCAAGCTTCCCTTTACTCTTCTTTCC
TACGTTCAAGGATTATCTCATTGAAATCTGTTGGGGGAAGATTATACAAACTGTTCCTTTATCTTCCTTTTCGTCCTCTG
TACCATGTCTATTAGAACATTCAGAAGATGCTTGACCCTGCTCCTTCTCAAGCTGCCACCAAGCAAGCTCAGGGTTTTCT
GGATTCCCCAATTCCAGCTGGAAAATTCTCC

Alignment

ORF - retro_meug_997 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.85 %
• Parental protein coverage: 63.64 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  ERQEEKLKNNNRDLSMVRMKSMFAIGF-CFTALMGMFNSIF-DGRVVAKLPFTPLSYIQGLSHRNLLGED
          .R.E......N....MVRMKS.FAI.F.CFTAL.GMFNSI..DG.VVAKLPFT.LSY.QGLSH.NLLGED
Retrocopy KRRE*RGRRRN*RITMVRMKSRFAIDF<CFTALRGMFNSIL<DGQVVAKLPFTLLSYVQGLSH*NLLGED

Parental  YTDCSFIFLYILCTMSIRQNIQKMLGL-APSRAATKQAGGFLGPPTPAGKFS
          YT.CSFIFL..LCTMSIR......L.L.APS.AATKQA.GFL..P.PAGKFS
Retrocopy YTNCSFIFLFVLCTMSIR-TFRRCLTL<APSQAATKQAQGFLDSPIPAGKFS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_997 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_997 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000010009	1 retrocopy	retro_btau_1441,
Canis familiaris	ENSCAFG00000013472	2 retrocopies	retro_cfam_1640, retro_cfam_833,
Echinops telfairi	ENSETEG00000009382	2 retrocopies	retro_etel_1552, retro_etel_570,
Macropus eugenii	ENSMEUG00000011045	2 retrocopies	retro_meug_894, retro_meug_997 ,
Monodelphis domestica	ENSMODG00000001335	2 retrocopies	retro_mdom_1319, retro_mdom_334,
Oryctolagus cuniculus	ENSOCUG00000008441	2 retrocopies	retro_ocun_1148, retro_ocun_1642,
Otolemur garnettii	ENSOGAG00000011784	1 retrocopy	retro_ogar_2381,
Sarcophilus harrisii	ENSSHAG00000016602	1 retrocopy	retro_shar_790,